Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 99 of 216
Found at i:30930316 original size:13 final size:13
Alignment explanation
Indices: 30930300--30930344 Score: 63
Period size: 13 Copynumber: 3.2 Consensus size: 13
30930290 TTAATATTCT
30930300 GCATTAAACAACA
1 GCATTAAACAACA
30930313 GCATTAAACAACAGTA
1 GCATTAAACAAC---A
30930329 GCATTAAACAACA
1 GCATTAAACAACA
30930342 GCA
1 GCA
30930345 GCAAAACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 16 0.55
16 13 0.45
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (13 bp):
GCATTAAACAACA
Found at i:30930331 original size:16 final size:15
Alignment explanation
Indices: 30930300--30930347 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
30930290 TTAATATTCT
30930300 GCATTAAACAAC--A
1 GCATTAAACAACAGA
30930313 GCATTAAACAACAGTA
1 GCATTAAACAACAG-A
30930329 GCATTAAACAACAGCA
1 GCATTAAACAACAG-A
30930345 GCA
1 GCA
30930348 AAACACATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
13 12 0.39
16 19 0.61
ACGTcount: A:0.50, C:0.23, G:0.12, T:0.15
Consensus pattern (15 bp):
GCATTAAACAACAGA
Found at i:30930434 original size:16 final size:16
Alignment explanation
Indices: 30930413--30930446 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
30930403 GTTTGAGACA
30930413 TAATTAA-ACACTTAAT
1 TAATTAAGA-ACTTAAT
30930429 TAATTAAGAACTTAAT
1 TAATTAAGAACTTAAT
30930445 TA
1 TA
30930447 GGTCATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (16 bp):
TAATTAAGAACTTAAT
Found at i:30932332 original size:16 final size:18
Alignment explanation
Indices: 30932298--30932336 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
30932288 TTTTCTTTCG
30932298 TTTCTTTTTCAACATTTT
1 TTTCTTTTTCAACATTTT
30932316 TTTCTTTTTC-A-ATTTT
1 TTTCTTTTTCAACATTTT
30932332 TTTCT
1 TTTCT
30932337 CAATCTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
17 1 0.05
18 10 0.48
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCTTTTTCAACATTTT
Found at i:30932345 original size:18 final size:18
Alignment explanation
Indices: 30932324--30932358 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30932314 TTTTTCTTTT
30932324 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
30932342 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
30932359 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:30932355 original size:6 final size:6
Alignment explanation
Indices: 30932346--30932474 Score: 53
Period size: 6 Copynumber: 20.0 Consensus size: 6
30932336 TCAATCTCAA
* * * **
30932346 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC TCACTT TTT-TT
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** **
30932396 ATTTCTT TTTCTT TTGCAA TTTCTT TTTCATT TTCTCGCTT GCACTCTT
1 -TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TT-T--CTT --TTTCTT
**
30932445 TTTCTT TTTCAC TTTCTT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
30932475 CTTTTTCGTT
Statistics
Matches: 88, Mismatches: 25, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
5 2 0.02
6 60 0.68
7 15 0.17
8 7 0.08
9 2 0.02
10 2 0.02
ACGTcount: A:0.08, C:0.21, G:0.02, T:0.69
Consensus pattern (6 bp):
TTTCTT
Found at i:30932431 original size:30 final size:29
Alignment explanation
Indices: 30932314--30932431 Score: 84
Period size: 30 Copynumber: 4.0 Consensus size: 29
30932304 TTTCAACATT
* *
30932314 TTTTTCTTTTTCAATTTTTTTCTCAATCTC
1 TTTTTCTTTTTCAATTTTTTT-TCATTTTC
**
30932344 AATTTCTTTTTCAATTTTCTTTTCTTCATTTTC
1 TTTTTCTTTTTCAA--TT-TTTT-TTCATTTTC
* *
30932377 TTTTTC--TCTC-ACTTTTTTT-A-TTTC
1 TTTTTCTTTTTCAATTTTTTTTCATTTTC
*
30932401 TTTTTCTTTTGCAATTTCTTTTTCATTTTC
1 TTTTTCTTTTTCAATTT-TTTTTCATTTTC
30932431 T
1 T
30932432 CGCTTGCACT
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
24 10 0.15
25 1 0.01
26 4 0.06
27 7 0.10
28 6 0.09
29 1 0.01
30 18 0.27
31 3 0.04
32 2 0.03
33 14 0.21
34 1 0.01
ACGTcount: A:0.12, C:0.19, G:0.01, T:0.69
Consensus pattern (29 bp):
TTTTTCTTTTTCAATTTTTTTTCATTTTC
Found at i:30932462 original size:18 final size:18
Alignment explanation
Indices: 30932397--30932472 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 18
30932387 ACTTTTTTTA
* *
30932397 TTTCTTTTTCTTTTGCAA
1 TTTCTTTTTCTTTTTCAC
*
30932415 TTTCTTTTTCATTTTCTCGC
1 TTTCTTTTTC-TTTT-TCAC
30932435 TTGCACTCTTTTTCTTTTTCAC
1 TT----TCTTTTTCTTTTTCAC
30932457 TTTCTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
30932473 TTCTTTTTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
18 24 0.50
19 4 0.08
20 3 0.06
22 5 0.10
23 4 0.08
24 8 0.17
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCAC
Found at i:30933372 original size:24 final size:22
Alignment explanation
Indices: 30933345--30933396 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 22
30933335 TTTATACTTC
30933345 GAATTTTTTTCAATCTTTTTTTT
1 GAATTTTTTTCAAT-TTTTTTTT
*
30933368 AGAATTTTTTTCGATTTTTTTTT
1 -GAATTTTTTTCAATTTTTTTTT
30933391 GAATTT
1 GAATTT
30933397 CCTCTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 6 0.22
23 8 0.30
24 13 0.48
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.67
Consensus pattern (22 bp):
GAATTTTTTTCAATTTTTTTTT
Found at i:30934804 original size:14 final size:14
Alignment explanation
Indices: 30934785--30934812 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30934775 CTGCAGAGAA
30934785 CAATTAAATTCGGT
1 CAATTAAATTCGGT
30934799 CAATTAAATTCGGT
1 CAATTAAATTCGGT
30934813 AACCTGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CAATTAAATTCGGT
Found at i:30934893 original size:16 final size:16
Alignment explanation
Indices: 30934872--30934906 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30934862 TTAATATTCT
30934872 GCATTAAACAACAGCA
1 GCATTAAACAACAGCA
*
30934888 GCATTAAACAATAGCA
1 GCATTAAACAACAGCA
30934904 GCA
1 GCA
30934907 AAACACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (16 bp):
GCATTAAACAACAGCA
Found at i:30934993 original size:16 final size:16
Alignment explanation
Indices: 30934972--30935005 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30934962 GTTTGAGACA
30934972 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
30934988 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
30935004 TA
1 TA
30935006 GGTCATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:30935958 original size:15 final size:14
Alignment explanation
Indices: 30935938--30935977 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 14
30935928 GAATTATAGC
30935938 TTGTTTTGAATGAAG
1 TTGTTTTGAAT-AAG
30935953 TTGTTTTGGAATAAG
1 TTGTTTT-GAATAAG
30935968 TTGTTCTTGA
1 TTGTT-TTGA
30935978 TCATAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (14 bp):
TTGTTTTGAATAAG
Found at i:30942121 original size:17 final size:17
Alignment explanation
Indices: 30942099--30942132 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30942089 TTAATTTGTT
30942099 TTTAG-TTAAATTAATTA
1 TTTAGTTTAAA-TAATTA
30942116 TTTAGTTTAAATAATTA
1 TTTAGTTTAAATAATTA
30942133 ATTTGTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTAGTTTAAATAATTA
Found at i:30942446 original size:24 final size:24
Alignment explanation
Indices: 30942418--30942468 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
30942408 GTCTTTGCTA
* *
30942418 AAGCAAGCCTGGACGGCATTAAAG
1 AAGCAAGCATGGACAGCATTAAAG
30942442 AAGCAAGCATGGACAGCATTAAAG
1 AAGCAAGCATGGACAGCATTAAAG
30942466 AAG
1 AAG
30942469 TTGTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (24 bp):
AAGCAAGCATGGACAGCATTAAAG
Found at i:30944133 original size:10 final size:9
Alignment explanation
Indices: 30944118--30944177 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
30944108 AACCCGTTGA
30944118 ATTTTTTTT
1 ATTTTTTTT
30944127 GATTTTTCTTT
1 -ATTTTT-TTT
30944138 ATTTTTTATT
1 ATTTTTT-TT
30944148 -TTTTTTTT
1 ATTTTTTTT
*
30944156 GTTTTTTTCCT
1 ATTTTTTT--T
30944167 CATTTTTTTT
1 -ATTTTTTTT
30944177 A
1 A
30944178 AATTTTAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
8 2 0.05
9 15 0.35
10 15 0.35
11 4 0.09
12 7 0.16
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:30944646 original size:7 final size:7
Alignment explanation
Indices: 30944633--30944664 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
30944623 AAAAGATGAA
30944633 ATGTGGC
1 ATGTGGC
*
30944640 TTGTGGC
1 ATGTGGC
30944647 ATGTGGC
1 ATGTGGC
30944654 ATGTGGC
1 ATGTGGC
30944661 ATGT
1 ATGT
30944665 AGAAGTCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.41, T:0.34
Consensus pattern (7 bp):
ATGTGGC
Found at i:30955801 original size:24 final size:24
Alignment explanation
Indices: 30955761--30955819 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
30955751 TAGTTGTTTC
30955761 TTCCTT-TATTTCCTCCTTTT-CTGT
1 TTCCTTCT-TTTCCTCCTTTTCCT-T
* *
30955785 TTTCTTCTTTTCTTCCTTTTCCTT
1 TTCCTTCTTTTCCTCCTTTTCCTT
30955809 TTCCTTCTTTT
1 TTCCTTCTTTT
30955820 TCTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (24 bp):
TTCCTTCTTTTCCTCCTTTTCCTT
Found at i:30962035 original size:19 final size:17
Alignment explanation
Indices: 30961990--30962031 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
30961980 TGAAGTATTG
*
30961990 AAAAAAAACGAAAATTC
1 AAAAAAAATGAAAATTC
*
30962007 AAAAAAAATGAAACTTC
1 AAAAAAAATGAAAATTC
30962024 AAAAAAAA
1 AAAAAAAA
30962032 AATGTTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.74, C:0.10, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAAAATGAAAATTC
Found at i:30965678 original size:49 final size:49
Alignment explanation
Indices: 30965609--30966154 Score: 822
Period size: 49 Copynumber: 11.1 Consensus size: 49
30965599 GAAATGATAG
30965609 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30965658 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30965705 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
30965754 TAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA--TG-T---G-A
*
30965810 TGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 --T-A-A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30965864 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30965911 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30965960 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30966009 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
30966055 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
30966104 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30966151 TAAG
1 TAAG
30966155 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 15, Indels: 40
0.89 0.03 0.08
Matches are distributed among these distances:
46 12 0.03
47 135 0.29
48 35 0.08
49 225 0.49
50 1 0.00
51 3 0.01
52 2 0.00
54 1 0.00
55 2 0.00
56 1 0.00
58 2 0.00
59 3 0.01
61 41 0.09
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:30965773 original size:96 final size:97
Alignment explanation
Indices: 30965609--30966154 Score: 809
Period size: 96 Copynumber: 5.5 Consensus size: 97
30965599 GAAATGATAG
30965609 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
30965674 ATGTGATGAATGTGAAAGTG-TATATATGTGA
66 ATGTGATGAATGTGAAAGTGATATATATGTGA
* *
30965705 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
30965770 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCA
66 ATGTGATGAATGTGAAAGTG-ATATATA--TG-T---G-A
*
30965810 TGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
1 --T-A-A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
30965875 GGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
61 GGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
30965911 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
30965976 ATGTGATGAATGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG-ATATATATGTGA
30966009 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
30966071 ATGTGATGAATGTGGAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG-ATATATATGTGA
* * * * * * *
30966104 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
30966155 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 14, Indels: 38
0.89 0.03 0.08
Matches are distributed among these distances:
95 59 0.14
96 202 0.48
97 36 0.09
98 21 0.05
99 1 0.00
100 2 0.00
101 2 0.00
102 1 0.00
104 1 0.00
105 2 0.00
106 2 0.00
107 1 0.00
108 7 0.02
109 1 0.00
110 79 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (97 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGATATATATGTGA
Found at i:30965822 original size:61 final size:61
Alignment explanation
Indices: 30965748--30965869 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
30965738 GTGTATATAT
30965748 ATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
30965809 ATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
30965870 CTAATGGCCG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (61 bp):
ATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
Found at i:30965969 original size:206 final size:193
Alignment explanation
Indices: 30965611--30966154 Score: 826
Period size: 206 Copynumber: 2.8 Consensus size: 193
30965601 AATGATAGTA
30965611 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
30965676 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30965741 TATATATATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
131 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATA--T-AT--
30965806 GGCATGTGAT
187 ---ATGTGAT
*
30965816 AGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
1 A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
30965881 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
65 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
30965946 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
130 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
30966010 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
* * * * * * * *
30966073 GTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
30966138 TGTATA-A-ATGTGATAAG
129 TGTATATATATGTGATAAG
30966155 TCCCGAAGGG
Statistics
Matches: 324, Mismatches: 12, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
191 56 0.17
192 1 0.00
193 76 0.23
194 8 0.02
199 2 0.01
200 1 0.00
202 4 0.01
205 1 0.00
206 175 0.54
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (193 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
Found at i:30966070 original size:144 final size:144
Alignment explanation
Indices: 30965809--30966152 Score: 584
Period size: 144 Copynumber: 2.4 Consensus size: 144
30965799 GTGATAAGGC
*
30965809 ATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAA
30965874 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
65 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
30965939 TGAAAGTGTATATAT
130 TGAAAGTGTATATAT
*
30965954 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAAT
1 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAAT
30966019 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
30966084 GGAAGTGTATATAT
131 GAAAGTGTATATAT
* * * * * *
30966098 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
30966153 AGTCCCGAAG
Statistics
Matches: 189, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
142 8 0.04
143 1 0.01
144 126 0.67
145 54 0.29
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (144 bp):
ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATAT
Found at i:30966328 original size:37 final size:37
Alignment explanation
Indices: 30966272--30966350 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30966262 CCGAGCTCTA
* * *
30966272 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30966309 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30966346 AAGAC
1 AAGAC
30966351 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30974271 original size:980 final size:981
Alignment explanation
Indices: 30972372--30974336 Score: 3896
Period size: 980 Copynumber: 2.0 Consensus size: 981
30972362 TGCTTGTGAC
30972372 TATTTGGCTATCCTATTTTAGCACTATAAATAGGTGAAATCAGATTTTGTAATAGAGTTTTGATG
1 TATTTGGCTATCCTATTTTAGCACTATAAATAGGTGAAATCAGATTTTGTAATAGAGTTTTGATG
30972437 CTCTTTGAATGAAACTCTGTTCATTTGGTGAGAATTACTTTTCTCCGATTTTGTACAAAGACTTG
66 CTCTTTGAATGAAACTCTGTTCATTTGGTGAGAATTACTTTTCTCCGATTTTGTACAAAGACTTG
*
30972502 TTGGCTTATCTACAAAGCTAGTGGCGTCAACCCGTTCTTTTCTTTATCCCGAACTTATCACTTTA
131 TTGGCTTATCTACAAAGCTAGTGGCGTCAACCCGTTCTTTGCTTTATCCCGAACTTATCACTTTA
30972567 GCAAGTGTGGCGTTCGAACCCTATACTGAGGTTCCTATCTTTCTAGATAGTGGGTCAAGGTTTTG
196 GCAAGTGTGGCGTTCGAACCCTATACTGAGGTTCCTATCTTTCTAGATAGTGGGTCAAGGTTTTG
30972632 ATTGAATTTTCTATCCATCTCATTAAACGTATAAGTGTTGGGTCGACACTTACTAGTGTTGGTTC
261 ATTGAATTTTCTATCCATCTCATTAAACGTATAAGTGTTGGGTCGACACTTACTAGTGTTGGTTC
30972697 TTACTTGTTTCTTGAGCCATTTTTCTTTCCTTCATTTTATCATAACTGAACACATCCATTTTTAG
326 TTACTTGTTTCTTGAGCCATTTTTCTTTCCTTCATTTTATCATAACTGAACACATCCATTTTTAG
30972762 CCATTTTTTCTGAACCTTTATTGTTATAACACAATATTGAGGCTATTTTTTTTCAATTTTATTTG
391 CCATTTTTTCTGAACCTTTATTGTTATAACACAATATTGAGGCTATTTTTTTTCAATTTTATTTG
30972827 TTAGCTATTCATTTGTTCCTTACTTCATCGTAGACGATCGGGCAACTCAAATACGACTCGACTCA
456 TTAGCTATTCATTTGTTCCTTACTTCATCGTAGACGATCGGGCAACTCAAATACGACTCGACTCA
30972892 ACACCGAGGCAGATCGTATCAGTAGTCTACTCAGAATATCAAGAAATATGATATTGGACAATACA
521 ACACCGAGGCAGATCGTATCAGTAGTCTACTCAGAATATCAAGAAATATGATATTGGACAATACA
30972957 AGTGTGACTATTCCACGACTTGTATCCAATCTAGATATTAAGGATAAAAGGATATAATACATGAA
586 AGTGTGACTATTCCACGACTTGTATCCAATCTAGATATTAAGGATAAAAGGATATAATACATGAA
30973022 AAAAATTATCACAAAAAGGTTAGGTCGAATCACGACTTCTTGTCACTTGGGTAGCAATGATGCAT
651 AAAAATTATCACAAAAAGGTTAGGTCGAATCACGACTTCTTGTCACTTGGGTAGCAATGATGCAT
30973087 TGCTAGATGCCTTTAATTACTTGTAATATTAGAAACGTTCTAGTATTACTACTAACGTTACAAGA
716 TGCTAGATGCCTTTAATTACTTGTAATATTAGAAACGTTCTAGTATTACTACTAACGTTACAAGA
30973152 GCCTACAAGATCACACCCTATACTTGAAGCGAACATATTCCAAATACTTTTTGTATTGTATTTAG
781 GCCTACAAGATCACACCCTATACTTGAAGCGAACATATTCCAAATACTTTTTGTATTGTATTTAG
30973217 CTATCACATGAATTAAATTAATTATTGAATTAATTTAATTTGATAGTTAAATACTGAACACATTA
846 CTATCACATGAATTAAATTAATTATTGAATTAATTTAATTTGATAGTTAAATACTGAACACATTA
30973282 TATATACAAGCTTGTTGTACACAAATAGAGAAAATAGATAAAATTAATATATGAATTTAATTCAT
911 TATATACAAGCTTGTTGTACACAAATAGAGAAAATAGATAAAATTAATATATGAATTTAATTCAT
30973347 ACAAAA
976 ACAAAA
*
30973353 TATTTGGCTATCCTATTTTAGCACTATAAATAGGTGAAATCAGATTTTGTAATGGAGTTTTGATG
1 TATTTGGCTATCCTATTTTAGCACTATAAATAGGTGAAATCAGATTTTGTAATAGAGTTTTGATG
30973418 CTCTTTGAATGAAACTCTGTTCATTTGGTGAGAATTACTTTTCTCCGATTTTGTACAAAGACTTG
66 CTCTTTGAATGAAACTCTGTTCATTTGGTGAGAATTACTTTTCTCCGATTTTGTACAAAGACTTG
30973483 TTGGCTTATCTACAAAGCTAGTGGCGTCAACCCGTTCTTTGCTTTATCCCGAACTTATCACTTTA
131 TTGGCTTATCTACAAAGCTAGTGGCGTCAACCCGTTCTTTGCTTTATCCCGAACTTATCACTTTA
30973548 GCAAGTGTGGCGTTCGAACCCTATACTGAGGTTCCTATCTTTCTAGATAGTGGGTCAAGGTTTTG
196 GCAAGTGTGGCGTTCGAACCCTATACTGAGGTTCCTATCTTTCTAGATAGTGGGTCAAGGTTTTG
30973613 ATTGAATTTTCTATCCATCTCATTAAACGTATAAGTGTTGGGTCGACACTTACTAGTGTTGGTTC
261 ATTGAATTTTCTATCCATCTCATTAAACGTATAAGTGTTGGGTCGACACTTACTAGTGTTGGTTC
30973678 TTACTTGTTTCTTGAGCCATTTTTCTTTCCTTCATTTTATCATAACTGAACACATCCATTTTTAG
326 TTACTTGTTTCTTGAGCCATTTTTCTTTCCTTCATTTTATCATAACTGAACACATCCATTTTTAG
30973743 CCATTTTTTCTGAACCTTTATTGTTATAACACAATATTGAGGCTA-TTTTTTTCAATTTTATTTG
391 CCATTTTTTCTGAACCTTTATTGTTATAACACAATATTGAGGCTATTTTTTTTCAATTTTATTTG
30973807 TTAGCTATTCATTTGTTCCTTACTTCATCGTAGACGATCGGGCAACTCAAATACGACTCGACTCA
456 TTAGCTATTCATTTGTTCCTTACTTCATCGTAGACGATCGGGCAACTCAAATACGACTCGACTCA
30973872 ACACCGAGGCAGATCGTATCAGTAGTCTACTCAGAATATCAAGAAATATGATATTGGACAATACA
521 ACACCGAGGCAGATCGTATCAGTAGTCTACTCAGAATATCAAGAAATATGATATTGGACAATACA
30973937 AGTGTGACTATTCCACGACTTGTATCCAATCTAGATATTAAGGATAAAAGGATATAATACATGAA
586 AGTGTGACTATTCCACGACTTGTATCCAATCTAGATATTAAGGATAAAAGGATATAATACATGAA
30974002 AAAAATTATCACAAAAAGGTTAGGTCGAATCACGACTTCTTGTCACTTGGGTAGCAATGATGCAT
651 AAAAATTATCACAAAAAGGTTAGGTCGAATCACGACTTCTTGTCACTTGGGTAGCAATGATGCAT
*
30974067 TGCTAGATGCCTTTAATTACTTGTAATATTAGAAACGTTTTAGTATTACTACTAACGTTACAAGA
716 TGCTAGATGCCTTTAATTACTTGTAATATTAGAAACGTTCTAGTATTACTACTAACGTTACAAGA
30974132 GCCTACAAGATCACACCCTATACTTGAAGCGAACATATTCCAAATACTTTTTGTATTGTATTTAG
781 GCCTACAAGATCACACCCTATACTTGAAGCGAACATATTCCAAATACTTTTTGTATTGTATTTAG
30974197 CTATCACATGAATTAAATTAATTATTGAATTAATTTAATTTGATAGTTAAATACTGAACACATTA
846 CTATCACATGAATTAAATTAATTATTGAATTAATTTAATTTGATAGTTAAATACTGAACACATTA
30974262 TATATACAAGCTTGTTGTACACAAATAGAGAAAATAGATAAAATTAATATATGAATTTAATTCAT
911 TATATACAAGCTTGTTGTACACAAATAGAGAAAATAGATAAAATTAATATATGAATTTAATTCAT
30974327 ACAAAA
976 ACAAAA
30974333 TATT
1 TATT
30974337 AATTGAATAT
Statistics
Matches: 981, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
980 548 0.56
981 433 0.44
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (981 bp):
TATTTGGCTATCCTATTTTAGCACTATAAATAGGTGAAATCAGATTTTGTAATAGAGTTTTGATG
CTCTTTGAATGAAACTCTGTTCATTTGGTGAGAATTACTTTTCTCCGATTTTGTACAAAGACTTG
TTGGCTTATCTACAAAGCTAGTGGCGTCAACCCGTTCTTTGCTTTATCCCGAACTTATCACTTTA
GCAAGTGTGGCGTTCGAACCCTATACTGAGGTTCCTATCTTTCTAGATAGTGGGTCAAGGTTTTG
ATTGAATTTTCTATCCATCTCATTAAACGTATAAGTGTTGGGTCGACACTTACTAGTGTTGGTTC
TTACTTGTTTCTTGAGCCATTTTTCTTTCCTTCATTTTATCATAACTGAACACATCCATTTTTAG
CCATTTTTTCTGAACCTTTATTGTTATAACACAATATTGAGGCTATTTTTTTTCAATTTTATTTG
TTAGCTATTCATTTGTTCCTTACTTCATCGTAGACGATCGGGCAACTCAAATACGACTCGACTCA
ACACCGAGGCAGATCGTATCAGTAGTCTACTCAGAATATCAAGAAATATGATATTGGACAATACA
AGTGTGACTATTCCACGACTTGTATCCAATCTAGATATTAAGGATAAAAGGATATAATACATGAA
AAAAATTATCACAAAAAGGTTAGGTCGAATCACGACTTCTTGTCACTTGGGTAGCAATGATGCAT
TGCTAGATGCCTTTAATTACTTGTAATATTAGAAACGTTCTAGTATTACTACTAACGTTACAAGA
GCCTACAAGATCACACCCTATACTTGAAGCGAACATATTCCAAATACTTTTTGTATTGTATTTAG
CTATCACATGAATTAAATTAATTATTGAATTAATTTAATTTGATAGTTAAATACTGAACACATTA
TATATACAAGCTTGTTGTACACAAATAGAGAAAATAGATAAAATTAATATATGAATTTAATTCAT
ACAAAA
Found at i:30974715 original size:16 final size:16
Alignment explanation
Indices: 30974680--30974740 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
30974670 ATCTTCATTG
* *
30974680 AATCCCTAAAATATTAA
1 AATCCCT-AAATCTTGA
30974697 AATCCCTAAATCTTGA
1 AATCCCTAAATCTTGA
* *
30974713 AATCCTTAAATCTCGA
1 AATCCCTAAATCTTGA
30974729 AATCCCTAAATC
1 AATCCCTAAATC
30974741 GTTAGCATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
16 32 0.82
17 7 0.18
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.30
Consensus pattern (16 bp):
AATCCCTAAATCTTGA
Found at i:30976990 original size:41 final size:41
Alignment explanation
Indices: 30976930--30977180 Score: 222
Period size: 41 Copynumber: 6.1 Consensus size: 41
30976920 ATTGTACTCG
* * * * * *
30976930 ATTCAAAGTTATCGGAGTATAAATAAGGGCATGTATGTGCA
1 ATTCAGAGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
* * *
30976971 ATTCAGAGGTATCGAAGTATAATTAGGGGCAAGTATGTGCA
1 ATTCAGAGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
* * *
30977012 ATTCA-AGGGTATCGAAGTACAAAAAGGGGCACATATGTGTA
1 ATTCAGA-GGTATCGAAGTACAAATAGGGGCACGTATGTGCA
* * * * *
30977053 ATTTAG-GGATACCAAAGTACAAATAGGGGCACATATATGCA
1 ATTCAGAGG-TATCGAAGTACAAATAGGGGCACGTATGTGCA
*
30977094 ATTCAGGGGTATCGAAGTAC-AATCAGGGGCACGTATGTGCA
1 ATTCAGAGGTATCGAAGTACAAAT-AGGGGCACGTATGTGCA
* * * * * * *
30977135 ATTTA-AGGTACCAAAGTACAAACATGGGCACATATGTGGA
1 ATTCAGAGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
30977175 ATTCAG
1 ATTCAG
30977181 GGAATAATTA
Statistics
Matches: 171, Mismatches: 32, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
40 35 0.20
41 134 0.78
42 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (41 bp):
ATTCAGAGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
Found at i:30977071 original size:82 final size:81
Alignment explanation
Indices: 30976963--30977179 Score: 256
Period size: 82 Copynumber: 2.7 Consensus size: 81
30976953 TAAGGGCATG
* * * * * *
30976963 TATGTGCAATTCAGAGGTATCGAAGTATAATTAGGGGCA-AGTATGTGCAATTCAAGGGTATCGA
1 TATGTGCAATTTA-AGGTACCAAAGTACAAATAGGGGCACA-TATATGCAATTCAAGGGTATCGA
30977027 AGTACAAAAAGGGGCACA
64 AGTACAAAAAGGGGCACA
* * *
30977045 TATGTGTAATTTAGGGATACCAAAGTACAAATAGGGGCACATATATGCAATTCAGGGGTATCGAA
1 TATGTGCAATTTAAGG-TACCAAAGTACAAATAGGGGCACATATATGCAATTCAAGGGTATCGAA
** *
30977110 GTACAATCAGGGGCACG
65 GTACAAAAAGGGGCACA
* * * *
30977127 TATGTGCAATTTAAGGTACCAAAGTACAAACATGGGCACATATGTGGAATTCA
1 TATGTGCAATTTAAGGTACCAAAGTACAAATAGGGGCACATATATGCAATTCA
30977180 GGGAATAATT
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
81 35 0.30
82 79 0.69
83 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (81 bp):
TATGTGCAATTTAAGGTACCAAAGTACAAATAGGGGCACATATATGCAATTCAAGGGTATCGAAG
TACAAAAAGGGGCACA
Found at i:30977136 original size:20 final size:20
Alignment explanation
Indices: 30977077--30977136 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
30977067 AAGTACAAAT
* *
30977077 AGGGGCACATATATGCAATTC
1 AGGGGCACGTATGTGCAA-TC
* * *
30977098 AGGGGTATCG-AAGTACAATC
1 AGGGGCA-CGTATGTGCAATC
30977118 AGGGGCACGTATGTGCAAT
1 AGGGGCACGTATGTGCAAT
30977137 TTAAGGTACC
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 11 0.38
22 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.22
Consensus pattern (20 bp):
AGGGGCACGTATGTGCAATC
Found at i:30979099 original size:20 final size:20
Alignment explanation
Indices: 30979074--30979114 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30979064 GCTACTATTG
30979074 TGAGCTTCTTATAAAATCTT
1 TGAGCTTCTTATAAAATCTT
*
30979094 TGAGCTTCTTGTAAAATCTT
1 TGAGCTTCTTATAAAATCTT
30979114 T
1 T
30979115 TGAACAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (20 bp):
TGAGCTTCTTATAAAATCTT
Found at i:30986311 original size:20 final size:21
Alignment explanation
Indices: 30986286--30986324 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30986276 CAAAATGAGC
*
30986286 AAATGAGCT-CATTGAGCTAG
1 AAATGAGCTGAATTGAGCTAG
30986306 AAATGAGCTGAATTGAGCT
1 AAATGAGCTGAATTGAGCT
30986325 CATCGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (21 bp):
AAATGAGCTGAATTGAGCTAG
Found at i:30988189 original size:19 final size:18
Alignment explanation
Indices: 30988158--30988194 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
30988148 TCACTCGTTG
*
30988158 CTTTTTCTATCTTTCTTT
1 CTTTTTCCATCTTTCTTT
30988176 CTTTTTCCACTCTTTCTTT
1 CTTTTTCCA-TCTTTCTTT
30988195 TTCGGCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCCATCTTTCTTT
Found at i:30989480 original size:11 final size:11
Alignment explanation
Indices: 30989452--30989481 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
30989442 CTTTTTGAAC
30989452 TTTTTTTAAAT
1 TTTTTTTAAAT
*
30989463 TTTTTTTCAAT
1 TTTTTTTAAAT
30989474 TTTTTTTA
1 TTTTTTTA
30989482 TTTCGGGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:30993433 original size:27 final size:26
Alignment explanation
Indices: 30993402--30993617 Score: 236
Period size: 27 Copynumber: 8.0 Consensus size: 26
30993392 ATACTCCCGA
* *
30993402 AGGGTAAAATGACCGAAATACCCT-T
1 AGGGTAAAATGACCGTAATGCCCTGT
*
30993427 GATGGGTAAAATGATCGTAATGCCACTGT
1 -A-GGGTAAAATGACCGTAATGCC-CTGT
*
30993456 AGGGTAAAATGGCCGTAATGCCCTGT
1 AGGGTAAAATGACCGTAATGCCCTGT
**
30993482 AGGGTAAAATGGTCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATG-CCCTGT
* *
30993509 AGGGTAAAATGACTGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATG-CCCTGT
*
30993536 AGGGTAAAATGATCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCC-TGT
* *
30993563 AGGGTAAAATGATCGTAATGCTCCTAT
1 AGGGTAAAATGACCGTAATGC-CCTGT
* *
30993590 AGGGTAAAATGACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAAT-GCCCTGT
30993617 A
1 A
30993618 AAATGATTGT
Statistics
Matches: 165, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
26 27 0.16
27 131 0.79
28 6 0.04
29 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (26 bp):
AGGGTAAAATGACCGTAATGCCCTGT
Found at i:30993564 original size:54 final size:53
Alignment explanation
Indices: 30993402--30993601 Score: 269
Period size: 54 Copynumber: 3.7 Consensus size: 53
30993392 ATACTCCCGA
* * *
30993402 AGGGTAAAATGACCGAAATACCCTTGAT-GGGTAAAATGATCGTAATGCCACTGT
1 AGGGTAAAATGACCGTAATGCCCCT-ATAGGGTAAAATGATCGTAATGCC-CTGT
* * *
30993456 AGGGTAAAATGGCCGTAATG-CCCTGTAGGGTAAAATGGTCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGATCGTAATG-CCCTGT
*
30993509 AGGGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGATCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGATCGTAATGCCC-TGT
* *
30993563 AGGGTAAAATGATCGTAATGCTCCTATAGGGTAAAATGA
1 AGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGA
30993602 CTGTAATACC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.01
53 46 0.36
54 82 0.64
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (53 bp):
AGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGATCGTAATGCCCTGT
Found at i:30993600 original size:81 final size:80
Alignment explanation
Indices: 30993402--30993614 Score: 277
Period size: 80 Copynumber: 2.6 Consensus size: 80
30993392 ATACTCCCGA
* * * * * *
30993402 AGGGTAAAATGACCGAAATACCCTTGAT-GGGTAAAATGA-TCGTAATGCCACTGTAGGGTAAAA
1 AGGGTAAAATGATCGTAATGCCCCT-ATAGGGTAAAATGACT-GTAATGCCCCTATAGGGTAAAA
*
30993465 TGGCCGTAATGCCCTGT
64 TGACCGTAATGCCCTGT
* *
30993482 AGGGTAAAATGGTCGTAATGCCCCTGTAGGGTAAAATGACTGTAATGCCCCTATAGGGTAAAATG
1 AGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAGGGTAAAATG
*
30993547 ATCGTAATGCCCTTGT
66 ACCGTAATGCCC-TGT
* *
30993563 AGGGTAAAATGATCGTAATGCTCCTATAGGGTAAAATGACTGTAATACCCCT
1 AGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCT
30993615 GTAAAATGAT
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 63 0.54
81 52 0.45
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (80 bp):
AGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTGTAATGCCCCTATAGGGTAAAATG
ACCGTAATGCCCTGT
Found at i:30993722 original size:24 final size:24
Alignment explanation
Indices: 30993694--30993752 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
30993684 TCTGTGGTTA
*
30993694 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTATGATTT-G
*
30993718 TATGACTGATTTGTCTATGATTTG
1 AATGACTGATTTGTCTATGATTTG
30993742 AATGACTGATT
1 AATGACTGATT
30993753 CTGAGCATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTGTCTATGATTTG
Found at i:30993897 original size:26 final size:26
Alignment explanation
Indices: 30993868--30993921 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
30993858 TTGGCCACAT
* *
30993868 ATACTATTATTGGCAGGTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
30993894 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
30993920 AT
1 AT
30993922 GCTACTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:30993933 original size:26 final size:26
Alignment explanation
Indices: 30993878--30993933 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
30993868 ATACTATTAT
* ** *
30993878 TGGCAGGTTTGCTGCGATACTGTTGC
1 TGGCAGCTTTGCTGCGATACTACTGA
*
30993904 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCGATACTACTGA
30993930 TGGC
1 TGGC
30993934 TTTGTGTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.34, T:0.32
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTACTGA
Found at i:30993965 original size:32 final size:32
Alignment explanation
Indices: 30993924--30994164 Score: 215
Period size: 32 Copynumber: 7.5 Consensus size: 32
30993914 GCTGCGATGC
30993924 TACTGATGGCTTTGTG-TCGATCATAGTACTGT
1 TACTGATGGCTTTGTGCT-GATCATAGTACTGT
*
30993956 TACTGATGGCTTTGTGCTGATCATAGTACCGT
1 TACTGATGGCTTTGTGCTGATCATAGTACTGT
* * * **
30993988 TACTAATGGCTTTGTACTGATCATATTACCAT
1 TACTGATGGCTTTGTGCTGATCATAGTACTGT
* * *
30994020 TA-TCGATGGCTGTGTGCCGATCAT-TTCACTGT
1 TACT-GATGGCTTTGTGCTGATCATAGT-ACTGT
* *
30994052 TACTGATGGCTGTGTGCTGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCTGATCATAGT-ACTGT
* * * **
30994084 CATTGATGGCTTTGTGCCGATCAT-GTTACCAT
1 TACTGATGGCTTTGTGCTGATCATAG-TACTGT
* * *
30994116 TACTGATGGCTGTGTGCTTATCATA-TCACTGC
1 TACTGATGGCTTTGTGCTGATCATAGT-ACTGT
30994148 TACTGATGGCTTTGTGC
1 TACTGATGGCTTTGTGC
30994165 CAATCACATT
Statistics
Matches: 171, Mismatches: 29, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
31 4 0.02
32 164 0.96
33 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCTGATCATAGTACTGT
Found at i:30994011 original size:64 final size:63
Alignment explanation
Indices: 30993924--30994170 Score: 257
Period size: 64 Copynumber: 3.9 Consensus size: 63
30993914 GCTGCGATGC
* * *
30993924 TACTGATGGCTTTGTG-TCGATCATAGT-ACTGTTACTGATGGCTTTGTGCTGATCATAGTACCG
1 TACTGATGGCTGTGTGCT-GATCATA-TCACTGCTACTGATGGCTTTGTGCCGATCAT-GTACCG
30993987 T
63 T
* * * * *** * * *
30993988 TACTAATGGCTTTGTACTGATCATATTACCATTA-TCGATGGCTGTGTGCCGATCATTTCACTGT
1 TACTGATGGCTGTGTGCTGATCATATCACTGCTACT-GATGGCTTTGTGCCGATCATGT-ACCGT
* * *
30994052 TACTGATGGCTGTGTGCTGATCATATCACTGCCATTGATGGCTTTGTGCCGATCATGTTACCAT
1 TACTGATGGCTGTGTGCTGATCATATCACTGCTACTGATGGCTTTGTGCCGATCATG-TACCGT
* *
30994116 TACTGATGGCTGTGTGCTTATCATATCACTGCTACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTGTGTGCTGATCATATCACTGCTACTGATGGCTTTGTGCCGATCA
30994171 CATTACTACA
Statistics
Matches: 153, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
63 3 0.02
64 147 0.96
65 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (63 bp):
TACTGATGGCTGTGTGCTGATCATATCACTGCTACTGATGGCTTTGTGCCGATCATGTACCGT
Found at i:30994093 original size:96 final size:96
Alignment explanation
Indices: 30993924--30994164 Score: 299
Period size: 96 Copynumber: 2.5 Consensus size: 96
30993914 GCTGCGATGC
* * *
30993924 TACTGATGGCTTTGTGTCGATCATAGT-ACTGTTACTGATGGCTTTGTGCTGATCATAGTACCGT
1 TACTGATGGCTGTGTGCCGATCATA-TCACTGTTACTGATGGCTTTGTGCTGATCATAGTACCGC
* *
30993988 TACTAATGGCTTTGTACTGATCATATTACCAT
65 CACTAATGGCTTTGTACCGATCATATTACCAT
* * *
30994020 TA-TCGATGGCTGTGTGCCGATCATTTCACTGTTACTGATGGCTGTGTGCTGATCATA-TCACTG
1 TACT-GATGGCTGTGTGCCGATCATATCACTGTTACTGATGGCTTTGTGCTGATCATAGT-ACCG
* * * *
30994083 CCATTGATGGCTTTGTGCCGATCATGTTACCAT
64 CCACTAATGGCTTTGTACCGATCATATTACCAT
** *
30994116 TACTGATGGCTGTGTGCTTATCATATCACTGCTACTGATGGCTTTGTGC
1 TACTGATGGCTGTGTGCCGATCATATCACTGTTACTGATGGCTTTGTGC
30994165 CAATCACATT
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
95 3 0.02
96 120 0.97
97 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (96 bp):
TACTGATGGCTGTGTGCCGATCATATCACTGTTACTGATGGCTTTGTGCTGATCATAGTACCGCC
ACTAATGGCTTTGTACCGATCATATTACCAT
Found at i:30994207 original size:22 final size:22
Alignment explanation
Indices: 30994182--30994246 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
30994172 ATTACTACAC
30994182 TTATGGCTTCTAGCCATTCTGT
1 TTATGGCTTCTAGCCATTCTGT
* * * *
30994204 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTTCTAGCCATTCTGT
* *
30994226 TTACGAC-TCTTAGCCATTCTG
1 TTATGGCTTC-TAGCCATTCTG
30994247 ACTACTAGAA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (22 bp):
TTATGGCTTCTAGCCATTCTGT
Found at i:30996703 original size:41 final size:41
Alignment explanation
Indices: 30996646--30996923 Score: 299
Period size: 41 Copynumber: 6.8 Consensus size: 41
30996636 AAGTTATCAG
* * *
30996646 AGTATAAACAGGGGCACATATGTGCATTTCAGGGGCACCAA
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAA
* ** * * *
30996687 AGTACGAACAAAGGCACGTATGTGTAATTCAAGGGTACCAA
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAA
* ** * *
30996728 AATACAATTAGGGGCACATATGTGTAATTCA-GGGTACCGA
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAA
* * *
30996768 AGTACAAATAGGGGCACTTATGTGTAATTCAGGGGTACCAA
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAA
* * * * *
30996809 AGTACAAATAGGGGCACGTTTGTGCAATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAA
* * *
30996850 AGTACAACCAGTGGCACGTATGTGCAATTCA-GGGTACCAA
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAA
* *
30996890 AGTACAAACAGGGGCACATATGTACAATTTAGGG
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGG
30996924 AATAATTAAC
Statistics
Matches: 198, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 70 0.35
41 128 0.65
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (41 bp):
AGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAA
Found at i:30996796 original size:81 final size:82
Alignment explanation
Indices: 30996646--30996923 Score: 335
Period size: 81 Copynumber: 3.4 Consensus size: 82
30996636 AAGTTATCAG
* * * * * * *
30996646 AGTATAAACAGGGGCACATATGTGCATTTCAGGGGCACCAAAGTACGAACAAAGGCACGTATGTG
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTG
30996711 TAATTCAAGGGTACCAA
66 TAATTCAAGGGTACCAA
* * * * * *
30996728 AATACAATTAGGGGCACATATGTGTAATTCA-GGGTACCGAAGTACAAATAGGGGCACTTATGTG
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTG
*
30996792 TAATTCAGGGGTACCAA
66 TAATTCAAGGGTACCAA
* * * * *
30996809 AGTACAAATAGGGGCACGTTTGTGCAATTTAGGGGTACCGAAGTACAACCAGTGGCACGTATGTG
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTG
*
30996874 CAATTC-AGGGTACCAA
66 TAATTCAAGGGTACCAA
* * *
30996890 AGTACAAACAGGGGCACATATGTACAATTTAGGG
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGG
30996924 AATAATTAAC
Statistics
Matches: 165, Mismatches: 30, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
81 106 0.64
82 59 0.36
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (82 bp):
AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTG
TAATTCAAGGGTACCAA
Found at i:30996872 original size:122 final size:122
Alignment explanation
Indices: 30996646--30996923 Score: 340
Period size: 122 Copynumber: 2.3 Consensus size: 122
30996636 AAGTTATCAG
* * *
30996646 AGTATAAACAGGGGCACATATGTGCATTTCAGGGGCACCAAAGTACGAACAAAGGCACGTATGTG
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGCACCAAAGTACAAACAAAGGCACGTATGTG
* ** * *
30996711 TAATTCAAGGGTACCAAAATACAATTAGGGGCACATATGTGTAATTCAGGGTACCGA
66 CAATTCAAGGGTACCAAAATACAACCAGGGGCACATATGTGCAATTCAGGGTACCAA
* * * * * ** *
30996768 AGTACAAATAGGGGCACTTATGTGTAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTTTGTG
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGGGCACCAAAGTACAAACAAAGGCACGTATGTG
* * * * * *
30996833 CAATTTAGGGGTACCGAAGTACAACCAGTGGCACGTATGTGCAATTCAGGGTACCAA
66 CAATTCAAGGGTACCAAAATACAACCAGGGGCACATATGTGCAATTCAGGGTACCAA
* *
30996890 AGTACAAACAGGGGCACATATGTACAATTTAGGG
1 AGTACAAACAGGGGCACATATGTGCAATTCAGGG
30996924 AATAATTAAC
Statistics
Matches: 129, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
122 129 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (122 bp):
AGTACAAACAGGGGCACATATGTGCAATTCAGGGGCACCAAAGTACAAACAAAGGCACGTATGTG
CAATTCAAGGGTACCAAAATACAACCAGGGGCACATATGTGCAATTCAGGGTACCAA
Found at i:31000115 original size:16 final size:16
Alignment explanation
Indices: 31000077--31000115 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
31000067 TTTTTGGTTG
* *
31000077 GTATAGCGTGGATGGT
1 GTATAGGGTGAATGGT
31000093 GTATAGGGTGAATGGT
1 GTATAGGGTGAATGGT
31000109 GTATAGG
1 GTATAGG
31000116 CTAATCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.44, T:0.31
Consensus pattern (16 bp):
GTATAGGGTGAATGGT
Found at i:31001152 original size:23 final size:23
Alignment explanation
Indices: 31001122--31001197 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
31001112 TGAAAAGATT
* *
31001122 AGGGATTTCACAATTTGGTTTTA
1 AGGGATTTCACGATTTGGTTCTA
*
31001145 AGGGATTTCATGATTTGGTTCTA
1 AGGGATTTCACGATTTGGTTCTA
31001168 AGGGATTTCACGATTTGGTTCTA
1 AGGGATTTCACGATTTGGTTCTA
*
31001191 AGCGATT
1 AGGGATT
31001198 AAGGATGTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.41
Consensus pattern (23 bp):
AGGGATTTCACGATTTGGTTCTA
Found at i:31004426 original size:57 final size:57
Alignment explanation
Indices: 31004314--31004461 Score: 181
Period size: 57 Copynumber: 2.5 Consensus size: 57
31004304 AATTGACAGT
*
31004314 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGAT-C--T-CTGATATAGCCCTCCCGAAGAATATGTG-G
*
31004377 AAAAAGATCTAGCCTGGACGGGTGATCT-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCTCTGATATAGCCCTCCCGAAGAATATGTGG
* * *
31004433 AAAATGGATTTAGCCCGGACGGGTAATCT
1 AAAA-AGATCTAGCCCGGACGGGTGATCT
31004462 GAATTAGGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
56 5 0.06
57 46 0.59
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:31020062 original size:24 final size:25
Alignment explanation
Indices: 31020035--31020081 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
31020025 CCTTGGCTGA
*
31020035 ATTTTCACCATC-ATTCACTTAGTC
1 ATTTCCACCATCAATTCACTTAGTC
* *
31020059 ATTTCCATCATCAATTCATTTAG
1 ATTTCCACCATCAATTCACTTAG
31020082 CCAAATTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.43
Consensus pattern (25 bp):
ATTTCCACCATCAATTCACTTAGTC
Found at i:31020256 original size:12 final size:12
Alignment explanation
Indices: 31020241--31020297 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
31020231 CGGAGTAAGT
31020241 ATTTGAAAAAAA
1 ATTTGAAAAAAA
31020253 ATTTCGAAAAAAA
1 ATTT-GAAAAAAA
* *
31020266 TTTTGAAAAGAA
1 ATTTGAAAAAAA
**
31020278 ATTCAAAAAAAA
1 ATTTGAAAAAAA
31020290 ATTGTGAA
1 ATT-TGAA
31020298 CATGGTTGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
12 22 0.63
13 13 0.37
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.26
Consensus pattern (12 bp):
ATTTGAAAAAAA
Found at i:31020292 original size:25 final size:25
Alignment explanation
Indices: 31020242--31020289 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
31020232 GGAGTAAGTA
*
31020242 TTTGAAAAAAAATTTCGAAAAAAAT
1 TTTGAAAAAAAATTTCAAAAAAAAT
*
31020267 TTTGAAAAGAAA-TTCAAAAAAAA
1 TTTGAAAAAAAATTTCAAAAAAAA
31020290 ATTGTGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (25 bp):
TTTGAAAAAAAATTTCAAAAAAAAT
Found at i:31030070 original size:47 final size:47
Alignment explanation
Indices: 31029983--31030204 Score: 327
Period size: 47 Copynumber: 4.6 Consensus size: 47
31029973 GTATATTTGA
31029983 ATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTG
31030034 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
31030081 ATGAATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
31030128 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
31030175 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
31030205 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 144 0.91
51 15 0.09
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:31030381 original size:37 final size:37
Alignment explanation
Indices: 31030323--31030401 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
31030313 CCGAGCTCTA
* * *
31030323 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAG-ATTATGTCCGGGT
* *
31030360 AAGACCCGATAACTTCATGTGGAGGTTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
31030397 AAGAC
1 AAGAC
31030402 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:31037445 original size:49 final size:49
Alignment explanation
Indices: 31037226--31037779 Score: 857
Period size: 49 Copynumber: 11.6 Consensus size: 49
31037216 CCCTTCGGGA
* * *
31037226 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
31037273 CCTGTCAC----ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
31037318 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31037365 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31037412 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31037461 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* ** *
31037510 CTTATCAC--ATATGTACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31037557 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
31037606 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31037655 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31037702 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31037751 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
31037780 TATTTAAATA
Statistics
Matches: 471, Mismatches: 27, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
45 37 0.08
47 181 0.38
49 253 0.54
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:31037527 original size:96 final size:95
Alignment explanation
Indices: 31037226--31037779 Score: 830
Period size: 96 Copynumber: 5.8 Consensus size: 95
31037216 CCCTTCGGGA
* * * * * *
31037226 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
* *
31037288 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATTGGCCATTCGGC
* * *
31037318 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
31037382 CTTTCACATTCATCACATTGGCCATTCGGC
66 CTTTCACATTCATCACATTGGCCATTCGGC
31037412 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
31037477 ACACTTTCACATTCATCACATTGGCCATTCGGC
63 ACACTTTCACATTCATCACATTGGCCATTCGGC
* ** *
31037510 CTTATCAC-ATATGTACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATA
31037574 CACTTTCACATTCATCACATTGGCCATTCGGC
64 CACTTTCACATTCATCACATTGGCCATTCGGC
*
31037606 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
31037671 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTCGGC
31037702 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
31037767 ACACTTTCACATT
63 ACACTTTCACATT
31037780 TATTTAAATA
Statistics
Matches: 426, Mismatches: 26, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
92 46 0.11
94 43 0.10
96 229 0.54
98 108 0.25
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
CTTTCACATTCATCACATTGGCCATTCGGC
Found at i:31037530 original size:145 final size:145
Alignment explanation
Indices: 31037226--31037779 Score: 904
Period size: 145 Copynumber: 3.9 Consensus size: 145
31037216 CCCTTCGGGA
* * * * * * * *
31037226 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC----ATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
31037287 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
* * *
31037350 CATCGGCTATTAGGC
131 CATTGGCCATTCGGC
* *
31037365 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
31037430 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
31037495 CATTGGCCATTCGGC
131 CATTGGCCATTCGGC
* *
31037510 CTTATCACATATGTACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
31037575 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
*
31037640 CATTGGTCATTCGGC
131 CATTGGCCATTCGGC
31037655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
31037720 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
31037780 TATTTAAATA
Statistics
Matches: 391, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
139 49 0.13
143 43 0.11
145 299 0.76
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
CATTGGCCATTCGGC
Found at i:31043159 original size:36 final size:39
Alignment explanation
Indices: 31043103--31043193 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 39
31043093 TATTTTTTCG
* *
31043103 AATTTTTTTCTT-TTTCTTTTAAACTTTGAT-AAT-CA-
1 AATTTTTTTTTTGTTTCTTTTAAACTTTAATCAATACAT
* *
31043138 AATTTTTTTTTTGTTTTTTTTAAACTTTAATCAATATAT
1 AATTTTTTTTTTGTTTCTTTTAAACTTTAATCAATACAT
31043177 AATTTTTTATTTTGTTT
1 AATTTTTT-TTTTGTTT
31043194 GTTTGTTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 11 0.23
36 16 0.34
37 3 0.06
38 1 0.02
39 8 0.17
40 8 0.17
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (39 bp):
AATTTTTTTTTTGTTTCTTTTAAACTTTAATCAATACAT
Found at i:31044786 original size:13 final size:13
Alignment explanation
Indices: 31044761--31044823 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
31044751 ATTGAAAGAC
31044761 GAAAAAAAGAAAT
1 GAAAAAAAGAAAT
31044774 GAAAGAAAA-AAAT
1 GAAA-AAAAGAAAT
* *
31044787 -CAAAAAAGTAA-
1 GAAAAAAAGAAAT
*
31044798 GAGAAAAAGAAAAT
1 GAAAAAAAG-AAAT
*
31044812 GAAGAAAAGAAA
1 GAAAAAAAGAAA
31044824 ATTGAAAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
11 4 0.11
12 10 0.26
13 13 0.34
14 11 0.29
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (13 bp):
GAAAAAAAGAAAT
Found at i:31044848 original size:27 final size:29
Alignment explanation
Indices: 31044800--31044864 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
31044790 AAAAGTAAGA
31044800 GAAAAAGAAAATGAAGAAAAG-A-AAATT
1 GAAAAAGAAAATGAAGAAAAGAAGAAATT
* *
31044827 GAAAAAGAAATTG-AGATTAAGAAAGAAATT
1 GAAAAAGAAAATGAAGA-AAAG-AAGAAATT
31044857 GAAAAAGA
1 GAAAAAGA
31044865 GGAAATCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 3 0.09
27 15 0.47
29 1 0.03
30 13 0.41
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (29 bp):
GAAAAAGAAAATGAAGAAAAGAAGAAATT
Found at i:31044853 original size:45 final size:45
Alignment explanation
Indices: 31044802--31044914 Score: 135
Period size: 45 Copynumber: 2.5 Consensus size: 45
31044792 AAGTAAGAGA
* *
31044802 AAAAGAAAATGAAGAAAAGAAAATTGAAAAAGAAATTG-AGATTAAG
1 AAAAGAAATTGAAGAAAAGAAAATCGAAAAAGAAATTGAAGA--AAG
*
31044848 -AAAGAAATTGAA-AAAGAGGAAATCGAAAAAGAAATTGAAGAAAG
1 AAAAGAAATTGAAGAAA-AGAAAATCGAAAAAGAAATTGAAGAAAG
31044892 AAATAGAAATTGAAG-AAAGAAAA
1 AAA-AGAAATTGAAGAAAAGAAAA
31044915 GAAAATGAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
44 6 0.10
45 37 0.64
46 15 0.26
ACGTcount: A:0.65, C:0.01, G:0.20, T:0.13
Consensus pattern (45 bp):
AAAAGAAATTGAAGAAAAGAAAATCGAAAAAGAAATTGAAGAAAG
Found at i:31044899 original size:19 final size:19
Alignment explanation
Indices: 31044813--31044918 Score: 94
Period size: 19 Copynumber: 5.6 Consensus size: 19
31044803 AAAGAAAATG
31044813 AAGAAA-AGAAAATTGAA-A
1 AAGAAATAG-AAATTGAAGA
* *
31044831 AAGAAATTGAGATT-AAGA
1 AAGAAATAGAAATTGAAGA
* ** *
31044849 AAGAAATTGAAAAAGAGGA
1 AAGAAATAGAAATTGAAGA
*
31044868 AATCGAAAAAGAAATTGAAGA
1 AA--GAAATAGAAATTGAAGA
31044889 AAGAAATAGAAATTGAAGA
1 AAGAAATAGAAATTGAAGA
31044908 AAGAAA-AGAAA
1 AAGAAATAGAAA
31044919 ATGAGTTAGA
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.03
18 27 0.38
19 28 0.39
21 14 0.20
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.13
Consensus pattern (19 bp):
AAGAAATAGAAATTGAAGA
Found at i:31052967 original size:18 final size:17
Alignment explanation
Indices: 31052925--31052968 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
31052915 AACTATGTCA
31052925 TACATGAATCTCTTAAG
1 TACATGAATCTCTTAAG
* *
31052942 TACAATGAATTCTTTTAAT
1 TAC-ATGAA-TCTCTTAAG
31052961 TACATGAA
1 TACATGAA
31052969 CCTTCATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 10 0.43
19 10 0.43
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (17 bp):
TACATGAATCTCTTAAG
Found at i:31059947 original size:20 final size:19
Alignment explanation
Indices: 31059924--31060002 Score: 54
Period size: 20 Copynumber: 3.9 Consensus size: 19
31059914 CCACTATGCC
31059924 CCTGTTGGCACTTCGGTGCT
1 CCTGTT-GCACTTCGGTGCT
*
31059944 CCTGTATACACTTCGGTG-T
1 CCTGT-TGCACTTCGGTGCT
* * *
31059963 CCCTGTTTGCACATAC-GTACC
1 -CCTG-TTGCAC-TTCGGTGCT
31059984 CCTGTTCGCACTTCGGTGC
1 CCTGTT-GCACTTCGGTGC
31060003 CCTTGACTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
19 5 0.11
20 36 0.80
21 4 0.09
ACGTcount: A:0.11, C:0.33, G:0.23, T:0.33
Consensus pattern (19 bp):
CCTGTTGCACTTCGGTGCT
Found at i:31059986 original size:60 final size:60
Alignment explanation
Indices: 31059888--31060002 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
31059878 CTTGTTCTAT
* *
31059888 TATACACTTCAGTGTCCCTGGTTGCACCACTATGCCCCTGTTGGCACTTCGGTGCTCCTG
1 TATACACTTCAGTGTCCCTGGTTGCACCACTATACCCCTGTTCGCACTTCGGTGCTCCTG
* *
31059948 TATACACTTCGGTGTCCCTGTTTGCA-CA-TACGTACCCCTGTTCGCACTTCGGTGC
1 TATACACTTCAGTGTCCCTGGTTGCACCACTA--TACCCCTGTTCGCACTTCGGTGC
31060003 CCTTGACTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 2 0.04
59 2 0.04
60 45 0.92
ACGTcount: A:0.14, C:0.33, G:0.21, T:0.32
Consensus pattern (60 bp):
TATACACTTCAGTGTCCCTGGTTGCACCACTATACCCCTGTTCGCACTTCGGTGCTCCTG
Found at i:31065953 original size:27 final size:27
Alignment explanation
Indices: 31065902--31065953 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
31065892 CTCATCTTAG
** *
31065902 TTTAATTAATAAGTGTTTTTGTTAAAC
1 TTTAATTAATAAGTGTTGCTCTTAAAC
*
31065929 TTTATTTAATAAGTGTTGCTCTTAA
1 TTTAATTAATAAGTGTTGCTCTTAA
31065954 TTAATCTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (27 bp):
TTTAATTAATAAGTGTTGCTCTTAAAC
Found at i:31069390 original size:52 final size:52
Alignment explanation
Indices: 31069333--31069436 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
31069323 TTAAATTAAA
31069333 ACATGTTTTAATTATGTCCAGCCGAATTAATGTGTCTTATTTAGTTATCATT
1 ACATGTTTTAATTATGTCCAGCCGAATTAATGTGTCTTATTTAGTTATCATT
31069385 ACATGTTTTAATTATGTCCAGCCGAATTAATGTGTCTTATTTAGTTATCATT
1 ACATGTTTTAATTATGTCCAGCCGAATTAATGTGTCTTATTTAGTTATCATT
31069437 TAATTTGTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (52 bp):
ACATGTTTTAATTATGTCCAGCCGAATTAATGTGTCTTATTTAGTTATCATT
Found at i:31069439 original size:25 final size:24
Alignment explanation
Indices: 31069358--31069445 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 24
31069348 GTCCAGCCGA
31069358 ATTAATGTGTCTTATTTAGTTATC
1 ATTAATGTGTCTTATTTAGTTATC
* * *
31069382 ATTACATGT-T-TTAATTATGTCCAGCC
1 ATTA-ATGTGTCTTATTTA-GT-TA-TC
31069408 GAATTAATGTGTCTTATTTAGTTATC
1 --ATTAATGTGTCTTATTTAGTTATC
*
31069434 ATTTAATTTGTC
1 A-TTAATGTGTC
31069446 ACATTGTTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 17
0.67 0.10 0.24
Matches are distributed among these distances:
23 6 0.12
24 8 0.17
25 14 0.29
26 2 0.04
27 5 0.10
28 7 0.15
29 6 0.12
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTAATGTGTCTTATTTAGTTATC
Found at i:31069580 original size:14 final size:14
Alignment explanation
Indices: 31069561--31069587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31069551 ATACATTGGA
31069561 TAGATTCATGCATG
1 TAGATTCATGCATG
31069575 TAGATTCATGCAT
1 TAGATTCATGCAT
31069588 AGGAAGATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
TAGATTCATGCATG
Found at i:31089802 original size:10 final size:10
Alignment explanation
Indices: 31089787--31089855 Score: 70
Period size: 10 Copynumber: 6.9 Consensus size: 10
31089777 ACGAGCTCAA
31089787 TGAGCTGAAT
1 TGAGCTGAAT
31089797 TGAGCTCGAA-
1 TGAGCT-GAAT
*
31089807 TGAGCTGACT
1 TGAGCTGAAT
* *
31089817 TGAGCTCAAG
1 TGAGCTGAAT
31089827 TGAGCTGAAT
1 TGAGCTGAAT
*
31089837 TGAGCTTG-AG
1 TGAGC-TGAAT
31089847 TGAGCTGAA
1 TGAGCTGAA
31089856 CCGCATGGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 4 0.08
10 39 0.81
11 5 0.10
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:31089808 original size:20 final size:19
Alignment explanation
Indices: 31089779--31089842 Score: 101
Period size: 20 Copynumber: 3.3 Consensus size: 19
31089769 AGCTAATAAC
31089779 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
*
31089798 GAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGAATT
31089818 GAGCTCAAGTGAGCTGAATT
1 GAGCTCAA-TGAGCTGAATT
31089838 GAGCT
1 GAGCT
31089843 TGAGTGAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.20
20 33 0.80
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:31089831 original size:40 final size:39
Alignment explanation
Indices: 31089779--31089854 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
31089769 AGCTAATAAC
31089779 GAGCTCAATGAGCTGAATTGAGCTCGAATGAGCTGACTT
1 GAGCTCAATGAGCTGAATTGAGCTCGAATGAGCTGACTT
* *
31089818 GAGCTCAAGTGAGCTGAATTGAGCTTGAGTGAGCTGA
1 GAGCTCAA-TGAGCTGAATTGAGCTCGAATGAGCTGA
31089855 ACCGCATGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 8 0.24
40 26 0.76
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (39 bp):
GAGCTCAATGAGCTGAATTGAGCTCGAATGAGCTGACTT
Found at i:31089848 original size:20 final size:20
Alignment explanation
Indices: 31089787--31089855 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
31089777 ACGAGCTCAA
*
31089787 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAG
* *
31089807 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCGAG
*
31089827 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
31089847 TGAGCTGAA
1 TGAGCTGAA
31089856 CCGCATGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:31090480 original size:15 final size:15
Alignment explanation
Indices: 31090460--31090513 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
31090450 CTTTCGTCAG
*
31090460 TCTTTTCTTTCTTTT
1 TCTTTTCTCTCTTTT
*
31090475 TCTTTTCACTCTTTT
1 TCTTTTCTCTCTTTT
* *
31090490 T-GTTTCTCTCATTT
1 TCTTTTCTCTCTTTT
31090504 TCTTTT-TCTC
1 TCTTTTCTCTC
31090514 GCTCAATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 15 0.47
15 17 0.53
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (15 bp):
TCTTTTCTCTCTTTT
Found at i:31093704 original size:18 final size:18
Alignment explanation
Indices: 31093683--31093722 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
31093673 TGAAAGGAAG
31093683 AAAGAAAAAGA-AATCGAA
1 AAAGAAAAAGAGAAT-GAA
31093701 AAAGAAAAAGAGAATGAA
1 AAAGAAAAAGAGAATGAA
31093719 AAAG
1 AAAG
31093723 GGTAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (18 bp):
AAAGAAAAAGAGAATGAA
Found at i:31095529 original size:33 final size:34
Alignment explanation
Indices: 31095492--31095563 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
31095482 GAGTTAGTTT
31095492 ATTAAATTTAGTTCAGCTCAAATAAGTGTAAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTAAGTA
* * *
31095525 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTAAGTA
31095559 ATTAA
1 ATTAA
31095564 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTAAGTA
Found at i:31105283 original size:17 final size:14
Alignment explanation
Indices: 31105246--31105275 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31105236 TATTTGGTTG
31105246 TAACAATATAATAA
1 TAACAATATAATAA
31105260 TAACAATATAATAA
1 TAACAATATAATAA
31105274 TA
1 TA
31105276 GCAACAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
TAACAATATAATAA
Found at i:31107044 original size:48 final size:48
Alignment explanation
Indices: 31106973--31107070 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
31106963 ACATATAAAG
31106973 TATGCTATAGTATGCCCAAAGACCAATCATGAGATAATTGTAATTACA
1 TATGCTATAGTATGCCCAAAGACCAATCATGAGATAATTGTAATTACA
31107021 TATGCTATAGTATGCCCAAAGACCAATCATGAGATAATTGTAATTACA
1 TATGCTATAGTATGCCCAAAGACCAATCATGAGATAATTGTAATTACA
31107069 TA
1 TA
31107071 CTTATTTTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (48 bp):
TATGCTATAGTATGCCCAAAGACCAATCATGAGATAATTGTAATTACA
Found at i:31107766 original size:20 final size:22
Alignment explanation
Indices: 31107718--31107766 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
31107708 GTAGCGACAC
31107718 AGGTGTGGTAAGGAGGTGGCGTCAG
1 AGGTGTGGTAAGGAGGT---GTCAG
31107743 AGGTGTGGTAAGGAGGT-T-AG
1 AGGTGTGGTAAGGAGGTGTCAG
31107763 AGGT
1 AGGT
31107767 TCAAGTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
25 17 0.71
ACGTcount: A:0.22, C:0.04, G:0.51, T:0.22
Consensus pattern (22 bp):
AGGTGTGGTAAGGAGGTGTCAG
Found at i:31114559 original size:15 final size:17
Alignment explanation
Indices: 31114539--31114580 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
31114529 AAAGGAAAAG
31114539 AGAAAAAGAAA-TGA-A
1 AGAAAAAGAAATTGAGA
31114554 AGAAAAAGAAATTGAGA
1 AGAAAAAGAAATTGAGA
31114571 ATGAAAAAGA
1 A-GAAAAAGA
31114581 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.46
16 3 0.12
17 2 0.08
18 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (17 bp):
AGAAAAAGAAATTGAGA
Found at i:31116983 original size:31 final size:31
Alignment explanation
Indices: 31116914--31116983 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
31116904 TGCAAGTTGA
* * * *
31116914 TCAGCTC-GATTCTAGCTTATTGAGCTTGAT
1 TCAGCTCAAATTCTAGCTCATTGAGCTTAAC
*
31116944 TCAACTCAAATTCTAGCTCATTGAGCTTAAC
1 TCAGCTCAAATTCTAGCTCATTGAGCTTAAC
31116975 TCAGCTCAA
1 TCAGCTCAA
31116984 TAGCTCAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (31 bp):
TCAGCTCAAATTCTAGCTCATTGAGCTTAAC
Found at i:31118887 original size:27 final size:27
Alignment explanation
Indices: 31118857--31119061 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
31118847 ATATTAAGTC
* * *
31118857 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
31118884 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
31118912 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
31118939 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
31118966 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
31118993 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
31119020 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
31119047 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31119062 GTACAATTTA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 132 0.84
28 26 0.16
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:31126157 original size:27 final size:27
Alignment explanation
Indices: 31126125--31126327 Score: 248
Period size: 27 Copynumber: 7.6 Consensus size: 27
31126115 TATATTAGTC
* * * *
31126125 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31126152 CGCACACTTAGTGC-ACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
31126178 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
31126205 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31126232 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31126259 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31126286 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31126313 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31126328 GTACAATTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.15
27 130 0.84
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31128077 original size:11 final size:11
Alignment explanation
Indices: 31128061--31128085 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31128051 CTCCCATGTT
31128061 AGGAAGCTTCA
1 AGGAAGCTTCA
31128072 AGGAAGCTTCA
1 AGGAAGCTTCA
31128083 AGG
1 AGG
31128086 GACGTTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (11 bp):
AGGAAGCTTCA
Found at i:31132568 original size:12 final size:12
Alignment explanation
Indices: 31132528--31132567 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
31132518 TTCTTCTTTC
31132528 TCTTTTTC-ATT
1 TCTTTTTCAATT
31132539 TC--TTTCAATT
1 TCTTTTTCAATT
31132549 TCTTTTTCAATGT
1 TCTTTTTCAAT-T
31132562 TCTTTT
1 TCTTTT
31132568 CTCGCTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.16
10 5 0.20
11 2 0.08
12 7 0.28
13 7 0.28
ACGTcount: A:0.12, C:0.17, G:0.03, T:0.68
Consensus pattern (12 bp):
TCTTTTTCAATT
Found at i:31133683 original size:15 final size:13
Alignment explanation
Indices: 31133662--31133695 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
31133652 TTTTTTTGGA
*
31133662 TTTTTTTTCAAAT
1 TTTTTTTTTAAAT
31133675 TTCTTTTTTTAAAT
1 TT-TTTTTTTAAAT
31133689 TTTTTTT
1 TTTTTTT
31133696 AAATGCTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTAAAT
Found at i:31139432 original size:43 final size:40
Alignment explanation
Indices: 31139380--31139578 Score: 176
Period size: 39 Copynumber: 4.9 Consensus size: 40
31139370 TGAGGAGCAC
*
31139380 TATCACTTAAGCTCGCATGGGGAGCTTTGTTGATACACAACT
1 TATC-CTTAAGCTCACA-GGGGAGCTTTGTTGATACACAACT
* * * * *
31139422 TCATCACTTAAGCTCACATGGGGAACCTCGCTGATACAAAACT
1 T-ATC-CTTAAGCTCACA-GGGGAGCTTTGTTGATACACAACT
* *
31139465 TATCCTT-AGCTCACAGGGGAGCTTT-TCTAATACACAGCT
1 TATCCTTAAGCTCACAGGGGAGCTTTGT-TGATACACAACT
* * *
31139504 TAT-CTTTAGCTTAC-GAGGGAGCTTCGTTGATACACAACT
1 TATCCTTAAGCTCACAG-GGGAGCTTTGTTGATACACAACT
*
31139543 TAT-CTTTAGCTCAC-GGTGGAGCTTTGTTGATACACA
1 TATCCTTAAGCTCACAGG-GGAGCTTTGTTGATACACA
31139579 GCTTGTAGAA
Statistics
Matches: 132, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
38 5 0.04
39 75 0.57
40 9 0.07
41 3 0.02
42 4 0.03
43 36 0.27
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (40 bp):
TATCCTTAAGCTCACAGGGGAGCTTTGTTGATACACAACT
Found at i:31146419 original size:41 final size:41
Alignment explanation
Indices: 31146368--31146519 Score: 171
Period size: 41 Copynumber: 3.7 Consensus size: 41
31146358 TTATTCCTTG
* *
31146368 AATTGCACATATGTGCCCCTATTTGTACTTTGGTACCCCTA
1 AATTACACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* * * *
31146409 AATTACACATACGTGCCCCTGTTTGTACTTCGATGCCCCTA
1 AATTACACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* * * * * *
31146450 GATTATACATACGTG-CCCTGTTTGTACTTTAGTACCACTG
1 AATTACACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* *
31146490 AATTGCACATATGTGCCCCTATTTGTACTT
1 AATTACACATACGTGCCCCTATTTGTACTT
31146520 CAATACCCTT
Statistics
Matches: 91, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.33
41 61 0.67
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
AATTACACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
Found at i:31146447 original size:20 final size:19
Alignment explanation
Indices: 31146420--31146478 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
31146410 ATTACACATA
31146420 CGTGCCCCTGTTTGTACTT
1 CGTGCCCCTGTTTGTACTT
* * *
31146439 CGATGCCCCTAGATTATACATA
1 CG-TGCCCCT-GTTTGTAC-TT
31146461 CGTG-CCCTGTTTGTACTT
1 CGTGCCCCTGTTTGTACTT
31146479 TAGTACCACT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
18 1 0.03
19 8 0.26
20 11 0.35
21 8 0.26
22 3 0.10
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.37
Consensus pattern (19 bp):
CGTGCCCCTGTTTGTACTT
Found at i:31146538 original size:41 final size:41
Alignment explanation
Indices: 31146363--31146548 Score: 139
Period size: 41 Copynumber: 4.6 Consensus size: 41
31146353 CCTAATTATT
* * ***
31146363 CCTTGAATTGCACATATGTGCCCCTATTTGTACTTTGGTAC
1 CCTTGAAATGCACATACGTGCCCCTATTTGTACTTCAATAC
* * * * *
31146404 CCCT-AAATTACACATACGTGCCCCTGTTTGTACTTCGATGCC
1 CCTTGAAA-TGCACATACGTGCCCCTATTTGTACTTCAAT-AC
* * * * *
31146446 CCTAGATTAT--ACATACGTG-CCCTGTTTGTACTTTAGTAC
1 CCTTGA-AATGCACATACGTGCCCCTATTTGTACTTCAATAC
* *
31146485 CAC-TGAATTGCACATATGTGCCCCTATTTGTACTTCAATAC
1 C-CTTGAAATGCACATACGTGCCCCTATTTGTACTTCAATAC
*
31146526 CCTTGAAATGCACATGCGTGCCC
1 CCTTGAAATGCACATACGTGCCC
31146549 TGTTTACACT
Statistics
Matches: 111, Mismatches: 25, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 27 0.24
41 73 0.66
42 3 0.03
43 2 0.02
44 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (41 bp):
CCTTGAAATGCACATACGTGCCCCTATTTGTACTTCAATAC
Found at i:31146546 original size:81 final size:82
Alignment explanation
Indices: 31146363--31146553 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 82
31146353 CCTAATTATT
* * * * *
31146363 CCTTGAATTGCACATATGTGCCCCTATTTGTACTTTGGTACCCCTAAATTACACATACGTGCCCC
1 CCTTGAAATGCACATACGTG-CCCTGTTTGTACTTTAGTACCACTAAATTACACATACGTGCCCC
* * *
31146428 TGTTTGTACTTCGATGCC
65 TATTTGTACTTCAATGAC
* * * * *
31146446 CCTAGATTAT--ACATACGTGCCCTGTTTGTACTTTAGTACCACTGAATTGCACATATGTGCCCC
1 CCTTGA-AATGCACATACGTGCCCTGTTTGTACTTTAGTACCACTAAATTACACATACGTGCCCC
31146509 TATTTGTACTTCAAT-AC
65 TATTTGTACTTCAATGAC
*
31146526 CCTTGAAATGCACATGCGTGCCCTGTTT
1 CCTTGAAATGCACATACGTGCCCTGTTT
31146554 ACACTCCAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
79 2 0.02
80 6 0.07
81 67 0.75
82 8 0.09
83 5 0.06
84 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (82 bp):
CCTTGAAATGCACATACGTGCCCTGTTTGTACTTTAGTACCACTAAATTACACATACGTGCCCCT
ATTTGTACTTCAATGAC
Found at i:31148835 original size:33 final size:33
Alignment explanation
Indices: 31148793--31148859 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
31148783 ATAGTGGGGA
31148793 AGACTTGAATCTGTCCTCGCACAAAGCACATGT
1 AGACTTGAATCTGTCCTCGCACAAAGCACATGT
31148826 AGACTTGAATCTGTCCTCGCACAAAGCACATGT
1 AGACTTGAATCTGTCCTCGCACAAAGCACATGT
31148859 A
1 A
31148860 CTTTTTGGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (33 bp):
AGACTTGAATCTGTCCTCGCACAAAGCACATGT
Found at i:31152558 original size:21 final size:21
Alignment explanation
Indices: 31152520--31152560 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31152510 GATATTAAGA
*
31152520 AATTGATATTTTTGTGAATTG
1 AATTGATATTGTTGTGAATTG
31152541 AATTGATATATGTT-TGAATT
1 AATTGATAT-TGTTGTGAATT
31152561 ACAAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (21 bp):
AATTGATATTGTTGTGAATTG
Found at i:31168632 original size:132 final size:132
Alignment explanation
Indices: 31168395--31168658 Score: 406
Period size: 132 Copynumber: 2.0 Consensus size: 132
31168385 TATGGGGAAA
31168395 TGATACGAGACACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTACCACAAGGAC
1 TGATACGAGACACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTACCACAAGGAC
** * **
31168460 CAATAATGAGGTCAAAGGCCAGGCAAATGCGTATGAAACTAAATGGAATTGTTCAAAACTTCATT
66 CAATAACAAGGTCAAAGGCCAGGCAAATCCGTATGAAACTAAATGGAATCATTCAAAACTTCATT
31168525 AG
131 AG
* *
31168527 TGATACGAGTCACAAAGGCCCAATTCAAGCTCAATG-ACGTGATGGGCTCAAATTACCACAA-GA
1 TGATACGAGACACAAAGGCCCAACTCAAGCTCAA-GAACGTGATGGGCTCAAATTACCACAAGGA
* * *
31168590 CCCAATAACAAGGTCAAAGGCTAGGCAAATCCGTATGAAACTAAATGGAATCATTCAAGACTTTA
65 -CCAATAACAAGGTCAAAGGCCAGGCAAATCCGTATGAAACTAAATGGAATCATTCAAAACTTCA
31168655 TTAG
129 TTAG
31168659 CAAGGCCTTA
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
131 2 0.02
132 117 0.98
133 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (132 bp):
TGATACGAGACACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTACCACAAGGAC
CAATAACAAGGTCAAAGGCCAGGCAAATCCGTATGAAACTAAATGGAATCATTCAAAACTTCATT
AG
Found at i:31177741 original size:28 final size:27
Alignment explanation
Indices: 31177710--31177785 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
31177700 TATGCTATGT
*
31177710 AATAACTAGGACATATTAAAAAACATGC
1 AATAGCTA-GACATATTAAAAAACATGC
* * *
31177738 AATAGGCTTAGAAAAATT-AATAACATGC
1 AATA-GC-TAGACATATTAAAAAACATGC
31177766 AATAGCTATGACATATTAAA
1 AATAGCTA-GACATATTAAA
31177786 GCATGCAACG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
26 2 0.05
27 8 0.21
28 19 0.50
29 7 0.18
30 2 0.05
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (27 bp):
AATAGCTAGACATATTAAAAAACATGC
Found at i:31177857 original size:14 final size:14
Alignment explanation
Indices: 31177838--31177864 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31177828 GATTTTTAAC
31177838 AAATTAATTAACTT
1 AAATTAATTAACTT
31177852 AAATTAATTAACT
1 AAATTAATTAACT
31177865 AATTTAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTAATTAACTT
Found at i:31179069 original size:14 final size:14
Alignment explanation
Indices: 31179050--31179078 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31179040 AATAATCTTA
31179050 CAAGTCATGCAAGG
1 CAAGTCATGCAAGG
31179064 CAAGTCATGCAAGG
1 CAAGTCATGCAAGG
31179078 C
1 C
31179079 TAATGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.24, G:0.28, T:0.14
Consensus pattern (14 bp):
CAAGTCATGCAAGG
Found at i:31189387 original size:20 final size:20
Alignment explanation
Indices: 31189354--31189412 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
31189344 AGCTCCACTC
* *
31189354 AGCTCAAATCAGCTCACTTG
1 AGCTCAATTTAGCTCACTTG
* * **
31189374 AGCTTATTTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACTTG
*
31189394 AGCTCAATTTAGCTTACTT
1 AGCTCAATTTAGCTCACTT
31189413 TCAGCTCATC
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACTTG
Found at i:31191289 original size:24 final size:24
Alignment explanation
Indices: 31191262--31191313 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
31191252 ACTCACAATC
31191262 TCAACTAAATTGCTTAACCAAATT
1 TCAACTAAATTGCTTAACCAAATT
31191286 TCAACTAAATTGCTTAACCAAATT
1 TCAACTAAATTGCTTAACCAAATT
31191310 TCAA
1 TCAA
31191314 TTCATCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (24 bp):
TCAACTAAATTGCTTAACCAAATT
Found at i:31196305 original size:11 final size:11
Alignment explanation
Indices: 31196289--31196314 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31196279 ATTTTTTTAA
31196289 TTTTAAAATAT
1 TTTTAAAATAT
31196300 TTTTAAAATAT
1 TTTTAAAATAT
31196311 TTTT
1 TTTT
31196315 TTATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:31196350 original size:26 final size:26
Alignment explanation
Indices: 31196297--31196352 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
31196287 AATTTTAAAA
** * *
31196297 TATTTTTAAAATATTTTTTTATTTTT
1 TATTTTTAAAATAAATTTTTAGTGTT
*
31196323 TATTTTTAAAATAAATTTTTGGTGTT
1 TATTTTTAAAATAAATTTTTAGTGTT
31196349 TATT
1 TATT
31196353 AAAAAAATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (26 bp):
TATTTTTAAAATAAATTTTTAGTGTT
Found at i:31199086 original size:35 final size:35
Alignment explanation
Indices: 31199040--31199112 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
31199030 TGGGCTTTTC
31199040 TTATTGACAAGTATCCAAATACATAACACTAATTT
1 TTATTGACAAGTATCCAAATACATAACACTAATTT
31199075 TTATTGACAAGTATCCAAATACATAACACTAATTT
1 TTATTGACAAGTATCCAAATACATAACACTAATTT
31199110 TTA
1 TTA
31199113 AAGATTACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (35 bp):
TTATTGACAAGTATCCAAATACATAACACTAATTT
Found at i:31206683 original size:19 final size:20
Alignment explanation
Indices: 31206659--31206696 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31206649 TGAGCTGACT
31206659 GGAGCT-AAAATGAGCTAAG
1 GGAGCTGAAAATGAGCTAAG
*
31206678 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAAATGAGCTAA
31206697 AGTCAGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.11, G:0.32, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAAATGAGCTAAG
Found at i:31207895 original size:48 final size:49
Alignment explanation
Indices: 31207819--31207913 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 49
31207809 AAACTATGAC
*
31207819 CTTTCACTGAAAAATAAAATTTAGTCT-AAAACTAAATTACCACAATAG
1 CTTTCACTGAAAAATAAAATTTAGTCTAAAAAATAAATTACCACAATAG
* *
31207867 CTTTCA-TAGAAAAATATAATTTATTCTAAAAAATAAATTACCACAAT
1 CTTTCACT-GAAAAATAAAATTTAGTCTAAAAAATAAATTACCACAAT
31207914 TTTTTGACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.02
48 23 0.55
49 18 0.43
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (49 bp):
CTTTCACTGAAAAATAAAATTTAGTCTAAAAAATAAATTACCACAATAG
Found at i:31212347 original size:25 final size:24
Alignment explanation
Indices: 31212325--31212397 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 24
31212315 ACAATTAAGG
*
31212325 TGTCTGAACTAAGACCAATTTAATT
1 TGTCTAAACTAAGACCAATTTAA-T
*
31212350 TGTC-ACAACTAAGTCCAATTTAAT
1 TGTCTA-AACTAAGACCAATTTAAT
31212374 TCGTCTAAACTAAGACCAATTTAA
1 T-GTCTAAACTAAGACCAATTTAA
31212398 ATCATATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.05
25 39 0.93
26 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (24 bp):
TGTCTAAACTAAGACCAATTTAAT
Found at i:31220506 original size:12 final size:12
Alignment explanation
Indices: 31220489--31220515 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31220479 TCATTTCAAT
31220489 TTGATACTCACC
1 TTGATACTCACC
31220501 TTGATACTCACC
1 TTGATACTCACC
31220513 TTG
1 TTG
31220516 GCTTGACGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (12 bp):
TTGATACTCACC
Found at i:31221341 original size:54 final size:50
Alignment explanation
Indices: 31221270--31221396 Score: 123
Period size: 48 Copynumber: 2.5 Consensus size: 50
31221260 ATATCACTCA
* * * * * *
31221270 TTTCTTTTGCACTCTCATTTCTTTCTTCAATCTCACTCTCTTTTTCAGTTTTCT
1 TTTCTTTTTCACACTCATTTCTTTATTC---C-CAATCTCATTTTCAATTTTCT
31221324 TTTCTTTTTCACACTCA-TT-TTTATTCCCAATCTCATTTTCAATTTTCT
1 TTTCTTTTTCACACTCATTTCTTTATTCCCAATCTCATTTTCAATTTTCT
* *
31221372 TTTCTATCTCACACTCATCTTCTTT
1 TTTCTTTTTCACACTCAT-TTCTTT
31221397 TTCTTTCATT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
48 33 0.53
49 1 0.02
50 2 0.03
51 3 0.05
52 6 0.10
53 2 0.03
54 15 0.24
ACGTcount: A:0.15, C:0.28, G:0.02, T:0.56
Consensus pattern (50 bp):
TTTCTTTTTCACACTCATTTCTTTATTCCCAATCTCATTTTCAATTTTCT
Found at i:31221411 original size:15 final size:16
Alignment explanation
Indices: 31221386--31221417 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
31221376 TATCTCACAC
31221386 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
31221402 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
31221417 T
1 T
31221418 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:31222428 original size:12 final size:12
Alignment explanation
Indices: 31222411--31222462 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
31222401 TACAAATAAT
31222411 AATTTTTTTTTC
1 AATTTTTTTTTC
*
31222423 AATTTTTTTTTAG
1 AATTTTTTTTT-C
*
31222436 AATTTTTTTTTG
1 AATTTTTTTTTC
*
31222448 AATTTTTTTTAC
1 AATTTTTTTTTC
31222460 AAT
1 AAT
31222463 CTTGTAATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
12 25 0.69
13 11 0.31
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (12 bp):
AATTTTTTTTTC
Found at i:31222431 original size:13 final size:13
Alignment explanation
Indices: 31222413--31222457 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
31222403 CAAATAATAA
*
31222413 TTTTTTTTTCAAT
1 TTTTTTTTTGAAT
*
31222426 TTTTTTTTAGAA-
1 TTTTTTTTTGAAT
31222438 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
31222451 TTTTTTT
1 TTTTTTT
31222458 ACAATCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:31224751 original size:25 final size:24
Alignment explanation
Indices: 31224729--31224801 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 24
31224719 ACAATTAAGG
*
31224729 TGTCTGAACTAAGACCAATTTAATT
1 TGTCTAAACTAAGACCAATTTAA-T
*
31224754 TGTC-ACAACTAAGTCCAATTTAAT
1 TGTCTA-AACTAAGACCAATTTAAT
31224778 TCGTCTAAACTAAGACCAATTTAA
1 T-GTCTAAACTAAGACCAATTTAA
31224802 ATCATATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.05
25 39 0.93
26 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (24 bp):
TGTCTAAACTAAGACCAATTTAAT
Found at i:31224933 original size:9 final size:9
Alignment explanation
Indices: 31224916--31224945 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31224906 AACCGAAACA
*
31224916 TAATGTAAC
1 TAATTTAAC
31224925 TAATTTAAC
1 TAATTTAAC
31224934 TAATTTAAC
1 TAATTTAAC
31224943 TAA
1 TAA
31224946 AATTGAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (9 bp):
TAATTTAAC
Found at i:31225234 original size:25 final size:25
Alignment explanation
Indices: 31225204--31225273 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
31225194 ATTTTGACCC
* *
31225204 ACAGCTTGTGTGAGCATACTGATTT
1 ACAGCTCGTGTGAGCATACTGATCT
* *
31225229 ATAGCTCGTG-GAAGCATACCGATCT
1 ACAGCTCGTGTG-AGCATACTGATCT
*
31225254 ACAGCTCGAGTGAGCATACT
1 ACAGCTCGTGTGAGCATACT
31225274 AATTCACATC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACTGATCT
Found at i:31226411 original size:44 final size:44
Alignment explanation
Indices: 31226273--31226413 Score: 117
Period size: 44 Copynumber: 3.2 Consensus size: 44
31226263 TTTAAGAAAA
31226273 TCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCGATT
1 TCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCGATT
* * ** * * * * * **
31226317 TCAAGAATCAAGAAAATCAAGATTC-ACTTT-CTTGTTTTTAAG-AAAA
1 TCAAGAAAC-CG--AATCTTGGTCCAATTTTGC-TG-TTTTGAGCGATT
31226363 TCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCGATT
1 TCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCGATT
31226407 TCAAGAA
1 TCAAGAA
31226414 TCAAGAAAAT
Statistics
Matches: 67, Mismatches: 22, Indels: 16
0.64 0.21 0.15
Matches are distributed among these distances:
43 13 0.19
44 22 0.33
45 4 0.06
46 15 0.22
47 13 0.19
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (44 bp):
TCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCGATT
Found at i:31226440 original size:90 final size:90
Alignment explanation
Indices: 31226236--31226430 Score: 390
Period size: 90 Copynumber: 2.2 Consensus size: 90
31226226 ATGAAGAAAA
31226236 AAGAAAATCAAGATTCACTTTCTTGTTTTTAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTT
1 AAGAAAATCAAGATTCACTTTCTTGTTTTTAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTT
31226301 GCTGTTTTGAGCGATTTCAAGAATC
66 GCTGTTTTGAGCGATTTCAAGAATC
31226326 AAGAAAATCAAGATTCACTTTCTTGTTTTTAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTT
1 AAGAAAATCAAGATTCACTTTCTTGTTTTTAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTT
31226391 GCTGTTTTGAGCGATTTCAAGAATC
66 GCTGTTTTGAGCGATTTCAAGAATC
31226416 AAGAAAATCAAGATT
1 AAGAAAATCAAGATT
31226431 TCAAATCTTG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 105 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (90 bp):
AAGAAAATCAAGATTCACTTTCTTGTTTTTAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTT
GCTGTTTTGAGCGATTTCAAGAATC
Found at i:31227998 original size:21 final size:21
Alignment explanation
Indices: 31227955--31227998 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31227945 ACACACTCAG
*
31227955 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
*
31227976 CTTAGTTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
31227997 CT
1 CT
31227999 ACAAGACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:31228921 original size:50 final size:52
Alignment explanation
Indices: 31228862--31228993 Score: 135
Period size: 50 Copynumber: 2.6 Consensus size: 52
31228852 GTGTGTTCTG
* * *
31228862 CATTTAATAAAGTTATGCATTATGTAACTTCCATGCTAG-TTAAGTATGCAT
1 CATTAAATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAATATGCAT
* ** * * *
31228913 CA-TAAATAATGGCATGCATTATGAAACTCCCATGTTAGTTTAAATCTGCAT
1 CATTAAATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAATATGCAT
* *
31228964 CATTAAATTAAGTCT-TGCATTAAGTAACTC
1 CATTAAATAAAGT-TATGCATTATGTAACTC
31228994 ATTTGTCATT
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
50 29 0.46
51 14 0.22
52 20 0.32
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (52 bp):
CATTAAATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAATATGCAT
Found at i:31236028 original size:17 final size:18
Alignment explanation
Indices: 31235991--31236028 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
31235981 GATTGAGAGT
* *
31235991 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
31236009 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
31236026 GAA
1 GAA
31236029 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:31236041 original size:13 final size:12
Alignment explanation
Indices: 31236010--31236064 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
31236000 TGTGAAACAG
*
31236010 AAAAGAAATTGA
1 AAAAGAAGTTGA
31236022 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
31236034 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
31236046 AAATGAA-TTAGA
1 AAAAGAAGTT-GA
31236058 AAAAGAA
1 AAAAGAA
31236065 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 23 0.66
13 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Done.